9MS8 | pdb_00009ms8

PTCH1 in complex with Fab6H3

• PDB DOI: https://doi.org/10.2210/pdb9MS8/pdb
• EM Map EMD-48568: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN/IMMUNE SYSTEM
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Homo sapiens, Mus musculus
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2025-01-09 Released: 2025-04-02 
• Deposition Author(s): Hu, Q., Qi, X., Li, X.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.73 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Inhibiting hedgehog signal by a patched-1 antibody.

Hu, Q., Qi, X., Donnelly, L., Li, X.

(2025) Cell Discov 11: 29-29

• PubMed: 40128518 
• DOI: https://doi.org/10.1038/s41421-025-00772-6
• Primary Citation of Related Structures:  
  9MS8

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Organizational Affiliation: 
• Department of Molecular Genetics, University of Texas Southwestern Medical Center, Dallas, TX, USA.
Department of Molecular Genetics, University of Texas Southwestern Medical Center, Dallas, TX, USA. [e-mail].
Department of Molecular Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA. [e-mail].
Department of Molecular Genetics, University of Texas Southwestern Medical Center, Dallas, TX, USA. [e-mail].
Department of Biophysics, University of Texas Southwestern Medical Center, Dallas, TX, USA. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 145.41 kDa 
• Atom Count: 9,290 
• Modeled Residue Count: 1,189 
• Deposited Residue Count: 1,306 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein patched homolog 1	A	1,094	Homo sapiens	Mutation(s): 0  Gene Names: PTCH1, PTCH Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q13635 (Homo sapiens) Explore Q13635  Go to UniProtKB:  Q13635
PHAROS:  Q13635 GTEx:  ENSG00000185920

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
6H3 Fab light chain	B [auth L]	102	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
6H3 Fab heavy chain	C [auth H]	110	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.73 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-02 
Deposition Author(s): Hu, Q., Qi, X., Li, X.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM149533

Revision History  

• Version 1.0: 2025-04-02
  Type: Initial release
  
• Version 1.1: 2025-04-16
  Changes: Data collection, Database references